RetrogeneDB ID:

retro_nleu_994

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397278.1:24660275..24661617(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:LPCAT2
Ensembl ID:ENSNLEG00000001258
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_994
ATTGCCTTCCTCTTCCTCTGGCCAGTGGCCATGCTTTCCACCTCTGGCTATCCTGCTCAAATCCTGCAACCCTGCCAAGA
GTTGGAGGAAAAAACTGGTGAAACCAGTACTCAAGCTCATGCTTCAGGTGGGTTTCTTTTTAGCTGGGTTCCTGGCTAAA
GTGAAAGGGAAAAAGGCAACCCAAGACAAGGCCCCTATCTTCGTTACAGCACCACGGTCCACTTTCTTTGACTCAATCCC
CTGTGTGGTGGTGGGGTTACCCTCAGTGGTCTCTGCAAGTCAAAACGTGCAGATCCCATTGGCTGGGAAATTCCTATGGT
CAACACAGCTGGTGCTTGTGATCTGAGAAGACCCTAATTCCAGGAAGAATACTAAGAATGAAATCCTGAAGTGAGCGACA
TTTGGAAAGAAGTGGCCACAGATTCTGATTTTCCTAGAAGGTGTGTGCACCAATCGCTACTGTCTAGTCACTTTTAAACT
AGGGGCCTTCTGTTCAGGTGATCCTGTGTAGCCAGTGCTGCTCAGGTACCCAAACACCCTGGACACGGCAATCTGGACCT
GGCAGGGATTTACAGCCTTCCAGGCCTGTATGTTGACACTCAGTCAACTCTTCACCAGGGTAGAAGTTGAGTTTATGCCT
GTTTATATCCCAAATGATGAAGAAAAAAAAGACCCCATCCTTTTTGCCAATACAGTACACATCAACATGGCAAATGCTCT
AGGGGTGCCTGGGACAGGGCACACTTATGAAGACTGCAGACTGATGATCTCCGCAGGTAACCTTCAACTACCCATAGAAG
CTGGTTTCGTGGAATTTACAAAAATTAGCCAGAAGTTGAAGTTAGATAGGGATAACATTCATCAGCATTTGGATGAATAT
GCTGCAATTGCCGTTGCCTCAAAAGGAGGGAAGATAGGAATTGAAGAATTTTCAAGTTATTTAAAACTCCCAACTTCAGA
GCCCTTGAGACAACCCCCTGCCCTCTTTGGCAGGAATAATGATGGCAGCATAGACTTCAGAGAGTATGTAATAGGTCTGA
CTGTTCTATGCAATCCTGCCAACATTGAAAAGGGTCTGCAAATGTCCTTTAAGCTTTTTGATCTTGATGCGGATGGTTTA
ATAACAGAGCAGCAGTTCGCTGCTATACTTCAGGCAGCTTTTGGAGTGCCAAATGTTGATGTTTCCAGGCTCTTTCAGGA
AATAGCTGGACAGAAATCAGTGTACATTTCATATGAGAGATTTAAGAAATTTGCCCTGAAGCATCCAGCATATCCCAAGT
TATTTAATTCACACCTAGACCTCCAGGCAGCCTATATATATTCATTGCCCCAAAAAGTACAG

ORF - retro_nleu_994 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.83 %
Parental protein coverage: 81.95 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLILLLAWPFAAISTVCCPEKLT-HPVTGWRRKITQTALKFLARAMFFSMGFIVAVKGKIASPLEAPVFVA
...L..WP.A..ST...P......P...WR.K.....LK......FF..GF...VKGK.A....AP.FV.
RetrocopyIAFLFLWPVAMLSTSGYPAQIL>NPAKSWRKKLVKPVLKLMLQVGFFLAGFLAKVKGKKATQDKAPIFVT
ParentalAPHSTFFDGIACVVAGLPSIVSRNENAQVPLIGRLLRAVQPVLVSRVDPDSRKNTINEIIKRTTSGGEWP
AP.STFFD.I.CVV.GLPS.VS...N.Q.PL.G..L...Q.VLV...DP.SRKNT.NEI.K..T.G..WP
RetrocopyAPRSTFFDSIPCVVVGLPSVVSASQNVQIPLAGKFLWSTQLVLVI*EDPNSRKNTKNEILK*ATFGKKWP
ParentalQILVFPEGTCTNRSCLITFKPGAFIPGVPVQPVLLRYPNKLDTVTWTWQGYTFIQLCMLTFCQLFTKVEI
QIL.F.EG.CTNR.CL.TFK.GAF..G.PV.PVLLRYPN.LDT..WTWQG.T..Q.CMLT..QLFT.VE.
RetrocopyQILIFLEGVCTNRYCLVTFKLGAFCSGDPV*PVLLRYPNTLDTAIWTWQGFTAFQACMLTLSQLFTRVEV
ParentalEFMPVQVPNDEEKNDPVLFANKVRNLMAEALGIPVTDHTYEDCRLMISAGQLTLPMEAGLVEFTKISRKL
EFMPV..PNDE...DP.LFAN.V...MA.ALG.P.T.HTYEDCRLMISAG.L.LP.EAG.VEFTKIS.KL
RetrocopyEFMPVYIPNDEXXXDPILFANTVHINMANALGVPGTGHTYEDCRLMISAGNLQLPIEAGFVEFTKISQKL
ParentalKLDWDGVRKHLDEYASIASSSKGGRIGIEEFATYLKLPVSDVLRQLFALFDRNHDGSIDFREYVIGLAVL
KLD.D....HLDEYA.IA..SKGG.IGIEEF..YLKLP.S..LRQ..ALF.RN.DGSIDFREYVIGL.VL
RetrocopyKLDRDNIHQHLDEYAAIAVASKGGKIGIEEFSSYLKLPTSEPLRQPPALFGRNNDGSIDFREYVIGLTVL
ParentalCNPSNTEEIIQVAFKLFDVDEDGYITEEEFSTILQASLGVPDLDVSGLFKEIAQGDSV--SYEEFKSFAL
CNP.N.E...Q..FKLFD.D.DG.ITE..F..ILQA..GVP..DVS.LF.EIA...SV..SYE.FK.FAL
RetrocopyCNPANIEKGLQMSFKLFDLDADGLITEQQFAAILQAAFGVPNVDVSRLFQEIAGQKSVYISYERFKKFAL
ParentalKHPEYAKIFTTYLDLQTCHVFSLPKEVQ
KHP.Y.K.F...LDLQ.....SLP..VQ
RetrocopyKHPAYPKLFNSHLDLQAAYIYSLPQKVQ

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Nomascus leucogenys was not studied using ChIP-Seq data.

EST - click to see more details

Nomascus leucogenys was not studied using EST data.

TSS - click to see more details

Nomascus leucogenys was not studied using FANTOM5 data.

Lab - click to see more details

retro_nleu_994 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 20 parental genes, and 21 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000192721 retrocopy
retro_btau_64,
Callithrix jacchus ENSCJAG000000129021 retrocopy
retro_cjac_2945,
Dasypus novemcinctus ENSDNOG000000068591 retrocopy
retro_dnov_1735,
Dipodomys ordii ENSDORG000000131931 retrocopy
retro_dord_399,
Equus caballus ENSECAG000000096491 retrocopy
retro_ecab_865,
Erinaceus europaeus ENSEEUG000000142771 retrocopy
retro_eeur_109,
Homo sapiens ENSG000000872531 retrocopy
retro_hsap_185,
Gorilla gorilla ENSGGOG000000051441 retrocopy
retro_ggor_266,
Loxodonta africana ENSLAFG000000039651 retrocopy
retro_lafr_66,
Myotis lucifugus ENSMLUG000000040081 retrocopy
retro_mluc_88,
Macaca mulatta ENSMMUG000000044781 retrocopy
retro_mmul_392,
Mus musculus ENSMUSG000000331921 retrocopy
retro_mmus_270,
Nomascus leucogenys ENSNLEG00000001258 1 retrocopy
retro_nleu_994 ,
Pongo abelii ENSPPYG000000073581 retrocopy
retro_pabe_445,
Pan troglodytes ENSPTRG000000081242 retrocopies
retro_ptro_171, retro_ptro_2928,
Pteropus vampyrus ENSPVAG000000078011 retrocopy
retro_pvam_173,
Rattus norvegicus ENSRNOG000000166431 retrocopy
retro_rnor_309,
Sorex araneus ENSSARG000000119141 retrocopy
retro_sara_88,
Sarcophilus harrisii ENSSHAG000000123831 retrocopy
retro_shar_116,
Tursiops truncatus ENSTTRG000000011821 retrocopy
retro_ttru_188,


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